Low Energy Bioinspired-Information Processing
Le BIP MURI
How do biological systems process information with high energy efficiency?
This question is central to our interdisciplinary MURI effort funded by the AFOSR.
We focus in on neurons in particular, since they are the principal cell type driving nervous system function. Neurons have significant energy demand and requirement for efficient energy management, due to their high metabolic activity and constantly changing membrane potential. It is estimated that neurons consume almost 80% of all the energy in the brain, with the bulk majority of this consumption attributed to support the downstream processes elicited by synaptic transmission. Nonetheless, the cellular and sub-cellular mechanisms that support energy homeostasis within the nervous system are poorly understood.
One important neuronal feature that enhances energy efficiency is the coupling, both spatially and temporally, of energy production to energy demand. Emerging evidence suggests that neurons spatially compartmentalize both energy consumption and energy production, and that over time they regulate these factors in response to the levels of neuronal activity serving neural network function. The individual projects in our collaborative efforts span the molecular to organismal length scale and our team consists of experimentalists, theoreticians, and computational neuroscientists to investigate some of the fundamental mechanisms for low energy high efficiency information processing, in the form of memory storage. It is expected that the outcome of this project will lead to a mechanistic and predictive relationships between energy availability and memory storage at multiple scales and in multiple systems that can then be adapted to more complex systems and will inform the design of bio-inspired systems. Our education and training mission is also multidisciplinary, with an emphasis on student training in theoretical, computational, and experimental approaches to neuroscience.
Lead Investigator
Prof. Padmini Rangamani
Principal Investigators
News & Publications
News
(09/09/2019) Dr. Danielle Schmitt (Zhang Group) selected as an IEEE Women in Photonics Member of the Month for December 2019
(05/01/2017) Press Release for MURI
Publications
1. M. Bell, T.M. Bartol, T. Sejnowski, and P. Rangamani. 2019. “Dendritic Spine Geometry and Spine Apparatus Organization Govern the Spatiotemporal Dynamics of Calcium.” The Journal of General Physiology 151 (8): 1017–34. Published Link
2. A. Cugno, T. M. Bartol, T. J. Sejnowski, R. Iyengar, and P. Rangamani. 2019. “Geometric Principles of Second Messenger Dynamics in Dendritic Spines.” Scientific Reports 9 (1): 11676. Published Link
3. D. Ohadi and P. Rangamani. 2019. “Geometric Control of Frequency Modulation of cAMP Oscillations due to Calcium in Dendritic Spines.” Biophysical Journal. https://doi.org/10.1016/j.bpj.2019.10.004. Published Link
4. D. Ohadi, D. L. Schmitt, B. Calabrese, S. Halpain, J. Zhang, and P. Rangamani. 2019. “Computational Modeling Reveals Frequency Modulation of Calcium-cAMP/PKA Pathway in Dendritic Spines.” Biophysical Journal. https://doi.org/10.1016/j.bpj.2019.10.003. Published Link
5. L. M. Stolerman, M. Getz, S. G. Llewellyn Smith, M. Holst, and P. Rangamani. 2019. “Stability Analysis of a Bulk-Surface Reaction Model for Membrane-Protein Clustering.” bioRxiv. https://doi.org/10.1101/736165. (In revision, Bull. Math. Biol) In Revision
6. H.-P. Wang, J. W. Garcia, C.F. Sabottke, D.J. Spencer and T.J. Sejnowski. 2019. Feedforward Thalamocortical Connectivity Preserves Stimulus Timing Information in Sensory Pathways. Journal of Neuroscience 25 September 2019, 39 (39) 7674-7688. Published Link
7. D. L. Schmitt, S. Mehta and J. Zhang. Illuminating the kinome: visualizing real-time kinase activity in biological systems using genetically encoded fluorescent protein-based biosensors. Current Opinion in Chemical Biology, Accepted (2019) Published Link
8. S. Srinivasan, R.J. Greenspan, C.F. Stevens, and D. Grover (2018). Deep(er) learning. Journal of Neuroscience, 38(34), 7365-7374. Published Link
9. J. Keyes, A. Ganesan, O. Molinar-Inglis, A. Hamidzadeh, M. Ling, J. Trejo, A. Levchenko, J. Zhang. Signaling Diversity Enabled by Rap1-Regulated Plasma Membrane ERK with Distinct Temporal Dynamics. bioRxiv 781716; doi: https://doi.org/10.1101/781716
10. C. T. Lee*, J. G. Laughlin*, N. Angliviel de La Beaumelle, R. E. Amaro, J. A. McCammon, R. Ramamoorthi, M. J. Holst, and P. Rangamani. GAMer 2: A Sys-tem for 3D Mesh Processing of Cellular Electron Micrographs. bioRxiv 534479; doi:https://doi.org/10.1101/534479
11. C. T. Lee, J. Laughlin, J.B. Moody, R.E. Amaro, J. A. McCammon, M. Holst, and P.Rangamani: An Open Source Mesh Generation Platform for Biophysical Modeling Using Realistic Cellular Geometries. bioRxiv 765453; doi: https://doi.org/10.1101/765453
12. M. Ordyan, T. Bartol, M.B. Kennedy, P. Rangamani, and T. Sejnowksi: Interactions between calmodulin and neurogranin govern the dynamics of CaMKII as a leaky integrator. bioRxiv 809905; doi: https://doi.org/10.1101/809905
13. R. Vasan, M. Rowan, C.T. Lee, G.R. Johnson, P. Rangamani, and M. Holst: Applications and Challenges of Machine Learning to Enable Realistic Cellular Simulations. arXiv:1911.05218v1
14. E. Greenwald, S. Mehta, and J. Zhang. Genetically Encoded Fluorescent Biosensors Illuminate the Spatiotemporal Regulation of Signaling Networks. Chem. Rev. 2018, 118 (24), 11707–11794 Published Link
15. K.M. Pearce*, M. Bell*, W. H. Linthicum, Q. Wen, J. Srinivasan, P. Rangamani, and S. Scarlata. Gq-mediated calcium dynamics and membrane tension modulate neurite plasticity. bioRxiv (2019): 661975. https://doi.org/10.1101/661975 (Minor Revisions, Mol. Biol. Cell) In Publication
Upcoming Events
2019 Review meeting: Nov 19, 2019 Sanford Consortium of Regenerative Medicine Rm 1013B. 8:30 am to 3:00 pm.
2019 Monthly meeting schedule.
Monthly Meeting - Progress Update - Dhruv Grover, Greenspan
October 30th, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Jen-Yung Chen, Greenspan
September 25th, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Danielle Schmitt, Zhang
August 28th, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Justin Laughlin, Chris Lee, Rachel Mendelson Rangamani and Sejnowski
July 31st, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Sohum Mehta, Zhang
June 26th, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Allen Leung, Rangamani
May 22nd, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress update - Mariam Ordyan, Sejnowski
April 24th, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Jason Zhang, Zhang
March 27th, 2019, AP&M 1882, 10AM
Monthly Meeting - DURIP Planning Meeting
February 27th, 2019, AP&M 1882, 10AM
Monthly Meeting - Progress Update - Donya Ohadi, Rangamani
January 30th, 2019, AP&M 1882, 10AM
Monthly Meetings held on the last Wednesday of the month from 10AM to 12PM. Speakers updated as needed.
2018 Events
Monthly Meeting - Progress Update - Miriam Bell
September 26th, 2018 10-12 PM
AP&M 1882
Monthly Meeting - Progress Update - Dr. Barbara Calabrese
August 29th, 2018 4:30-6:30 PM
AP&M 1882
Monthly Meeting - Progress Update - Dr. Danielle Schmitt
July 25th, 2018 4:30-6:30 PM
AP&M 1882
There is no monthly meeting for the month of June.
Monthly Meeting - Progress Update - Dr. Andrea Cugno, Dr. Jeremiah Keyes
May 30th, 2018 4:30-6:30 PM
AP&M 1882
Monthly Meeting - Monte Carlo Simulations & MCell- Dr. Tom Bartol
April 25th, 2018 4:30-6:30 PM
AP&M 1882
Monthly Meeting - March 28th, 2018 4:30 - 6:30 PM AP&M 1882
First Year Review (2018)
On October 19, 2018 we held the first-year review of the LeBIP MURI, which was attended by program officers from the AFOSR and all our MURI colleagues. We were delighted to share our progress and engage in a day full of scientific discussions. We would like to extend our thanks to our program officers for their time as well as our presenters. We thank Dr. Andrea Cugno, Ms. Miriam Bell, Dr. Danielle Schmidt, Dr Barbara Calabrese, Mr. Shyam Patel, Ms. Rachel Mendelsohn, Dr. Mariam Ordyan, and Dr. Dhruv Grover for their hard work as well as our wonderful guest speaker Professor Duygu Kuzum for her enlightening presentation.
2018 First Year Review held at the Sanford Consortium for Regenerative Medicine in La Jolla, CA
Team Members
Our collaborative team consists of a diverse mix of experimentalists, computational biologists, and engineers.
Acknowledgements
We thank the Air Force Office of Scientific Research (AFOSR) and the Department of Defense for their generous funding of this research through grant number FA9550-18-1-0051.
Program Officer: Dr. Patrick Bradshaw
